genome.fa.s72.2.7.7.80.10.50.1000.22.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  22  of  39  ( 4596 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3259395--3259441	13	3.6	13	83	11	53	34	0	4	61	1.15
3261872--3261931	31	1.9	32	86	6	88	51	0	3	45	1.17
3263059--3263166	51	2.1	53	96	3	202	34	7	1	56	1.38
3264419--3264448	15	2.1	14	93	6	51	56	3	0	40	1.16
3264658--3264689	17	1.9	17	93	6	57	43	3	0	53	1.16
3267098--3267134	14	2.6	15	83	8	51	43	0	8	48	1.32
3269619--3269651	15	2.3	15	89	5	50	54	3	0	42	1.15
3269630--3269675	15	3.1	16	78	9	53	65	0	0	34	0.93
3271281--3271338	2	29.0	2	86	6	82	50	1	3	44	1.29
3271786--3271846	27	2.4	27	83	8	74	37	0	0	62	0.96
3271958--3272002	16	2.7	17	86	3	56	35	2	2	60	1.22
3277690--3277731	17	2.6	16	85	11	50	40	0	2	57	1.12
3278531--3278570	16	2.4	16	87	8	53	52	0	0	47	1.00
3278587--3278631	20	2.3	20	82	14	58	60	0	0	40	0.97
3278590--3278636	19	2.3	20	82	7	60	57	0	0	42	0.98
3279572--3279604	17	2.0	17	88	5	50	45	0	0	54	0.99
3280729--3280761	2	16.5	2	100	0	66	51	0	0	48	1.00
3282891--3282955	29	2.2	28	83	5	76	35	3	4	56	1.35
3286081--3286126	24	1.9	24	82	8	58	56	0	2	41	1.11
3287576--3287627	17	3.2	16	78	13	52	44	1	0	53	1.11
3288193--3288252	16	3.9	15	75	14	59	55	1	0	43	1.10
3288193--3288252	15	3.9	15	82	6	75	55	1	0	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3288203--3288297	37	2.8	33	83	15	99	51	2	2	44	1.25
3288446--3288518	26	2.9	24	75	6	65	65	6	1	26	1.25
3288504--3288551	24	2.1	23	88	7	71	62	0	0	37	0.95
3288512--3288596	16	5.9	14	68	27	54	52	1	0	45	1.08
3289265--3289324	21	2.8	22	76	11	63	71	5	1	21	1.14
3289883--3289934	3	17.7	3	80	11	54	36	1	0	61	1.07
3289854--3289933	21	3.8	21	86	6	101	36	2	0	61	1.10
3297616--3297677	3	20.7	3	83	0	61	20	69	6	3	1.25
3298272--3298350	23	3.6	22	75	11	74	39	2	0	58	1.12
3298421--3298461	21	2.0	21	85	0	55	43	0	2	53	1.13
3298769--3298840	8	8.9	8	73	21	53	38	0	0	61	0.96
3298741--3298849	32	3.3	32	73	18	98	38	0	0	61	0.96
3298814--3298859	24	1.9	24	81	0	56	28	0	0	71	0.86
3298773--3298902	16	8.4	15	68	20	72	33	0	0	64	1.04
3300151--3300186	13	3.0	12	88	11	56	61	0	0	38	0.96
3301179--3301229	24	2.1	24	92	0	84	33	3	0	62	1.13
3301647--3301693	22	2.0	23	84	15	62	55	0	0	44	0.99
3301651--3301715	30	2.1	32	86	11	91	55	0	0	44	0.99
3301679--3301735	23	2.5	23	83	13	73	54	0	1	43	1.10
3301656--3301731	30	2.3	32	76	19	75	55	0	1	43	1.08
3304543--3304568	4	6.5	4	100	0	52	50	0	0	50	1.00
3306851--3306893	17	2.4	19	80	7	54	53	0	4	41	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310554--3310610	23	2.5	22	80	8	69	47	1	0	50	1.11
3312577--3312611	15	2.3	15	90	0	52	20	42	20	17	1.89
3313078--3313118	15	2.9	15	85	7	50	41	0	0	58	0.98
3314681--3314721	10	4.0	10	83	3	55	43	0	2	53	1.13
3314710--3314751	22	1.9	22	85	9	59	54	0	0	45	0.99
3315557--3315644	42	2.1	42	97	0	167	39	11	5	43	1.64
3315582--3315649	22	3.2	21	62	17	50	36	11	7	44	1.69
3316632--3316698	18	3.7	18	76	7	57	53	1	1	43	1.19
3320857--3320889	2	16.5	2	100	0	66	0	48	0	51	1.00
3321758--3321802	21	2.0	22	83	8	56	51	0	2	46	1.13
3321727--3321834	32	3.4	32	82	7	123	52	1	1	43	1.22
3323172--3323205	2	17.0	2	100	0	68	50	0	0	50	1.00
3323431--3323486	24	2.3	23	85	14	69	41	0	0	58	0.98
3324097--3324136	8	5.0	8	93	0	62	42	7	0	50	1.30
3324092--3324133	14	3.0	14	92	0	66	42	7	0	50	1.30
3333284--3333320	17	2.1	19	85	10	51	51	2	0	45	1.15
3333564--3333625	30	2.1	29	81	3	70	38	1	1	58	1.18
3335429--3335459	16	1.9	16	100	0	62	48	0	6	45	1.28
3335803--3335835	2	16.5	2	100	0	66	48	0	0	51	1.00
3336047--3336082	8	4.6	8	86	6	56	47	2	0	50	1.15
3337747--3337784	18	2.1	19	85	14	53	44	2	0	52	1.14
3337763--3337820	22	2.8	21	72	12	57	41	0	1	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3338004--3338059	25	2.2	24	75	9	58	46	1	3	48	1.30
3338011--3338065	25	2.2	26	83	9	69	45	0	3	50	1.19
3338389--3338440	22	2.6	19	79	11	59	48	1	1	48	1.24
3340400--3340453	24	2.3	24	78	6	58	29	9	14	46	1.76
3341167--3341216	25	2.0	25	84	7	66	42	8	14	36	1.74
3341398--3341438	21	2.0	20	85	4	55	31	4	2	60	1.30
3341493--3341529	18	2.0	19	94	5	67	62	0	0	37	0.96
3341673--3341723	19	2.8	19	80	11	54	52	0	3	43	1.19
3342510--3342554	15	3.1	14	78	9	54	60	0	2	37	1.09
3342491--3342578	29	2.9	29	81	10	88	52	3	4	39	1.39
3342988--3343054	14	4.8	14	69	20	50	59	1	1	37	1.16
3342988--3343047	31	1.9	31	90	6	95	60	1	1	36	1.17
3343042--3343090	20	2.6	19	84	9	57	67	0	0	32	0.91
3348209--3348272	29	2.2	29	83	8	78	28	3	6	62	1.34
3348394--3348434	15	2.8	14	88	7	55	34	2	21	41	1.67
3349780--3349904	36	3.4	36	70	10	117	32	6	22	39	1.79
3349759--3350003	75	3.3	75	90	0	382	31	7	20	39	1.81
3350086--3350150	33	2.0	33	87	3	96	20	26	32	21	1.97
3351089--3351146	20	3.2	19	86	11	77	62	0	1	36	1.06
3351257--3351303	23	2.1	22	84	4	58	27	10	0	61	1.29
3355881--3355916	2	18.0	2	100	0	72	50	0	0	50	1.00
3360054--3360095	18	2.2	20	80	16	54	61	2	0	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3360539--3360621	32	2.7	29	72	22	71	54	1	0	44	1.08
3362280--3362344	17	3.8	16	76	17	60	53	0	0	46	1.00
3362767--3362850	42	2.0	42	90	0	132	29	5	7	57	1.50
3363829--3363955	68	1.9	68	93	0	218	29	26	15	27	1.96
3364449--3364476	2	14.0	2	100	0	56	50	0	0	50	1.00
3364921--3364963	21	2.0	21	86	8	61	44	0	0	55	0.99
3365214--3365293	15	5.2	14	74	16	70	31	2	5	61	1.31
3367877--3367944	2	34.0	2	90	0	100	50	5	0	44	1.26
3373172--3373227	21	2.6	21	85	2	67	51	1	0	46	1.11
3373356--3373387	12	2.8	12	95	4	57	43	0	0	56	0.99
3373404--3373462	23	2.6	22	83	2	64	42	1	8	47	1.44
3373409--3373462	22	2.4	23	84	3	65	42	1	7	48	1.42
3373520--3373602	9	9.0	9	75	19	73	50	0	1	48	1.08
3373521--3373600	13	5.8	13	76	17	72	51	0	1	47	1.08
3373536--3373618	17	4.8	17	75	11	80	46	1	1	50	1.16
3373509--3373618	35	3.2	33	79	10	94	48	0	1	49	1.18
3373473--3373602	9	14.3	9	69	22	60	45	0	0	53	1.05
3373526--3373600	5	15.0	5	78	20	52	52	0	0	48	1.00
3373538--3373619	35	2.4	35	85	2	103	47	1	1	50	1.16
3374552--3374609	25	2.3	23	78	16	62	46	1	0	51	1.11
3374540--3374591	19	2.8	18	77	16	52	51	1	0	46	1.12
3375785--3375836	18	2.9	18	77	5	52	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3375846--3375885	20	2.0	20	85	9	55	55	0	0	45	0.99
3375848--3375880	15	2.3	14	94	5	57	54	0	0	45	0.99
3378903--3378927	11	2.3	11	100	0	50	44	0	0	56	0.99
3379077--3379106	2	15.0	2	100	0	60	0	0	50	50	1.00
3379936--3379988	22	2.5	22	81	3	63	32	1	0	66	1.03
3383561--3383600	19	2.1	19	90	9	64	60	0	0	40	0.97
3384150--3384204	21	2.7	21	81	18	71	56	0	0	43	0.99
3385516--3385559	13	2.9	15	80	19	56	40	0	0	59	0.98
3387781--3387814	2	17.0	2	93	0	59	50	2	0	47	1.16
3395422--3395504	36	2.3	36	89	4	132	14	33	18	33	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39